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Crystal Structure of Internal Kinesin Motor Domain
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1F9T KAR3, PDB entry 1F9T
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 5 277 ammonium sulfate, sodium nitrate, sodium acetate, pH 5.0, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.85 67.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 105.588 α = 90 b = 105.588 β = 90 c = 84.771 γ = 120
Symmetry Space Group P 32 2 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 4 2001-12-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 8.3.1 1.1272 ALS 8.3.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.5 25 90.3 0.048 15.52 3.2 86218 77888 60.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.62 1.69 84.5 0.369 1.75
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT KAR3, PDB entry 1F9T 1.6 24.92 62677 62677 3326 91.58 0.2067 0.20676 0.20545 0.2172 0.23128 0.2145 RANDOM 26.595
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -0.02 -0.01 -0.02 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.592 r_scangle_it 5.675 r_scbond_it 3.479 r_mcangle_it 2.546 r_angle_refined_deg 1.855 r_mcbond_it 1.423 r_angle_other_deg 0.965 r_xyhbond_nbd_refined 0.261 r_nbd_other 0.253 r_symmetry_vdw_other 0.252
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.592 r_scangle_it 5.675 r_scbond_it 3.479 r_mcangle_it 2.546 r_angle_refined_deg 1.855 r_mcbond_it 1.423 r_angle_other_deg 0.965 r_xyhbond_nbd_refined 0.261 r_nbd_other 0.253 r_symmetry_vdw_other 0.252 r_nbd_refined 0.229 r_symmetry_hbond_refined 0.157 r_chiral_restr 0.123 r_nbtor_other 0.09 r_symmetry_vdw_refined 0.082 r_bond_refined_d 0.023 r_gen_planes_refined 0.009 r_gen_planes_other 0.003 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2518 Nucleic Acid Atoms Solvent Atoms 306 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling CNS phasing